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Install
install.packages('BatchJobs')
Monthly Downloads
3,251
Version
1.8
License
BSD_2_clause + file LICENSE
Issues
41
Pull Requests
7
Stars
83
Forks
20
Repository
https://github.com/tudo-r/BatchJobs
Maintainer
Bernd Bischl
Last Published
May 14th, 2019
Functions in BatchJobs (1.8)
Search functions
batchExpandGrid
Map function over all combinations.
cfReadBrewTemplate
Cluster functions helper: Read in your brew template file.
callFunctionOnSSHWorkers
Call an arbitrary function on specified SSH workers.
makeClusterFunctionsSSH
Create an SSH cluster to execute jobs.
getResources
Function to get job resources in job function.
makeRegistry
Construct a registry object.
makeJob
Creates a job description.
getSSHWorkersInfo
Print and return R installation and other information for SSH workers.
showLog
Display the contents of a log file.
makeClusterFunctionsTorque
Create cluster functions for torque-based systems.
cfBrewTemplate
Cluster functions helper: Brew your template into a job description file.
debugMulticore
Helper function to debug multicore mode.
showStatus
Retrieve or show status information about jobs.
addRegistrySourceDirs
Add source dirs to registry.
cfHandleUnknownSubmitError
Cluster functions helper: Handle an unknown error during job submission.
sweepRegistry
Sweep obsolete files from the file system.
filterResults
Find all results where a specific condition is true.
batchQuery
Manually query the BatchJobs database
batchReduce
Reduces via a binary function over a list adding jobs to a registry.
addRegistrySourceFiles
Add source files to registry.
findJobs
Finds ids of jobs that match a query.
debugSSH
Helper function to debug SSH mode.
cfKillBatchJob
Cluster functions helper: Kill a batch job via OS command
batchUnexport
Unload exported R objects.
findDone
Find jobs depending on computional state.
getErrorMessages
Get error messages of jobs.
checkIds
Check job ids.
configuration
BatchJobs configuration.
getConfig
Returns a list of BatchJobs configuration settings
syncRegistry
Syncronize staged queries into the registry.
getJobLocation
Get the physical location of job files on the hard disk.
copyRequiredJobFiles
ONLY FOR INTERNAL USAGE.
getJobIds
Get ids of jobs in registry.
getJobParamDf
Retrieve Job Parameters.
getJobNr
Get number of jobs in registry.
getJobInfo
Get computational information of jobs.
makeClusterFunctionsSLURM
Create cluster functions for SLURM-based systems.
makeClusterFunctionsSGE
Create cluster functions for Sun Grid Engine systems.
reduceResults
Reduce results from result directory.
getJobResources
Function to get the resources that were submitted for some jobs.
removeRegistry
Remove a registry object.
loadExports
Load exported R data objects.
sanitizePath
Sanitize a path
killJobs
Kill some jobs on the batch system.
loadConfig
Load a specific configuration file.
getJobs
Get jobs from registry by id.
getLogFiles
Get log file paths for jobs.
dbGetJobs
ONLY FOR INTERNAL USAGE.
dbCreateJobDefTable
ONLY FOR INTERNAL USAGE.
loadRegistry
Load a previously saved registry.
removeRegistrySourceFiles
Remove source files from registry.
loadResult
Loads a specific result file.
setRegistryPackages
Set packages for a registry.
resetJobs
Reset computational state of jobs.
showClusterStatus
Show information about available computational resources on cluster.
makeClusterFunctionsLSF
Create cluster functions for LSF systems.
testJob
Tests a job by running it with Rscript in a new process.
loadResults
Loads result files for id vector.
makeClusterFunctions
Create a ClusterFuntions object.
setConfig
Set and overwrite configuration settings
makeClusterFunctionsLocal
Create cluster functions for sequential execution on local host.
setJobFunction
Sets the job function for already existing jobs.
updateRegistry
ONLY FOR INTERNAL USAGE.
waitForJobs
Wait for termination of jobs on the batch system.
setJobNames
Set job names.
getJob
Get job from registry by id.
makeClusterFunctionsInteractive
Create cluster functions for sequential execution in same session.
grepLogs
Grep log files for a pattern.
installPackagesOnSSHWorkers
Install packages on SSH workers.
removeRegistryPackages
Remove packages from registry.
makeClusterFunctionsMulticore
Use multiple cores on local Linux machine to spawn parallel jobs.
removeRegistrySourceDirs
Remove packages from registry.
makeClusterFunctionsOpenLava
Create cluster functions for OpenLava systems.
makeSSHWorker
Create SSH worker for SSH cluster functions.
makeSubmitJobResult
Create a SubmitJobResult object.
submitJobs
Submit jobs or chunks of jobs to batch system via cluster function.
sourceRegistryFiles
Source registry files
batchMapResults
Maps a function over the results of a registry by using batchMap.
batchExport
Export R object to be available on the slaves.
BatchJobs
The BatchJobs package
batchMap
Maps a function over lists or vectors, adding jobs to a registry.
batchMapQuick
Combination of makeRegistry, batchMap and submitJobs.
addRegistryPackages
Add packages to registry.
applyJobFunction
applyJobFunction ONLY FOR INTERNAL USAGE.
batchReduceResults
Reduces results via a binary function and adds jobs for this to a registry.